List of usage examples for java.io ObjectInputStream close
public void close() throws IOException
From source file:MSUmpire.LCMSPeakStructure.LCMSPeakDIAMS2.java
private boolean JavaSerializationCluster2CurveRead() { if (!new File(FilenameUtils.getFullPath(ParentmzXMLName) + FilenameUtils.getBaseName(ParentmzXMLName) + "_Peak/" + FilenameUtils.getBaseName(ScanCollectionName) + "_Clus2Cur.ser").exists()) { return false; }//from w w w.jav a 2 s . com try { Logger.getRootLogger().debug("Reading PrecursorFragmentCorr serialization from file:" + FilenameUtils.getBaseName(ScanCollectionName) + "_Clus2Cur.ser..."); FileInputStream fileIn = new FileInputStream( FilenameUtils.getFullPath(ParentmzXMLName) + FilenameUtils.getBaseName(ParentmzXMLName) + "_Peak/" + FilenameUtils.getBaseName(ScanCollectionName) + "_Clus2Cur.ser"); ObjectInputStream in = new ObjectInputStream(fileIn); FragmentsClu2Cur = (HashMap<Integer, ArrayList<PrecursorFragmentPairEdge>>) in.readObject(); in.close(); fileIn.close(); } catch (Exception ex) { Logger.getRootLogger().error(ExceptionUtils.getStackTrace(ex)); return false; } return true; }
From source file:MSUmpire.LCMSPeakStructure.LCMSPeakDIAMS2.java
private boolean JavaSerializationCluster2CurveUnfragRead() { if (!new File(FilenameUtils.getFullPath(ParentmzXMLName) + FilenameUtils.getBaseName(ParentmzXMLName) + "_Peak/" + FilenameUtils.getBaseName(ScanCollectionName) + "_UnfClus2Cur.ser").exists()) { return false; }/*from w ww . jav a2 s. c o m*/ try { Logger.getRootLogger().debug("Reading UnfragPrecursorFragCorr serialization from file:" + FilenameUtils.getBaseName(ScanCollectionName) + "_UnfClus2Cur.ser..."); FileInputStream fileIn = new FileInputStream( FilenameUtils.getFullPath(ParentmzXMLName) + FilenameUtils.getBaseName(ParentmzXMLName) + "_Peak/" + FilenameUtils.getBaseName(ScanCollectionName) + "_UnfClus2Cur.ser"); ObjectInputStream in = new ObjectInputStream(fileIn); UnFragIonClu2Cur = (HashMap<Integer, ArrayList<PrecursorFragmentPairEdge>>) in.readObject(); in.close(); fileIn.close(); } catch (Exception ex) { Logger.getRootLogger().error(ExceptionUtils.getStackTrace(ex)); return false; } return true; }
From source file:info.donsun.cache.filecache.FileCache.java
@Override public List<Object> keys() throws CacheException { synchronized (LOCK) { List<Object> keys = new ArrayList<Object>(); for (String fileName : listFileNames()) { try { File file = FileUtils.getFile(config.getDir(), fileName); if (!file.exists()) { continue; }// ww w . j ava 2s . c om FileInputStream fileStream = new FileInputStream(file); ObjectInputStream in = new ObjectInputStream(fileStream); boolean isExpire = false; try { CachedObject cachedObject = (CachedObject) in.readObject(); // if (cachedObject.getExpire() > 0 && cachedObject.getExpire() < System.currentTimeMillis()) { isExpire = true; continue; } keys.add(cachedObject.getKey()); } finally { in.close(); fileStream.close(); if (isExpire) { FileUtils.forceDelete(file); } } } catch (Exception e) { throw new CacheException("Get cache file fail.", e); } } return keys; } }
From source file:Forms.FrmPrincipal.java
/** * Creates new form FrmPrincipal/*from www. ja v a 2 s .co m*/ */ public FrmPrincipal() { initComponents(); init(); try { FileInputStream fis = new FileInputStream("back.bin"); ObjectInputStream ois = new ObjectInputStream(fis); BackPropagation result = (BackPropagation) ois.readObject(); ois.close(); double[][] array = { { 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 1, 0, 0, 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0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 } }; for (int i = 0; i < array.length; i++) System.out.println(result.clasifica(array[i])); } catch (Exception e) { System.err.println("Aun no existe el archivo"); } //grafica(); }
From source file:com.gigaspaces.persistency.metadata.DefaultSpaceDocumentMapper.java
private Object deserializeObject(DBObject bson) { Object result = null;/*from www.j a va2s. c o m*/ try { ByteArrayInputStream bis = new ByteArrayInputStream((byte[]) bson.get(Constants.VALUE)); ObjectInputStream in = new ObjectInputStream(bis); try { result = in.readObject(); } finally { in.close(); bis.close(); } } catch (IOException e1) { throw new SpaceMongoException("can not deserialize object", e1); } catch (ClassNotFoundException e) { throw new SpaceMongoException("can not deserialize object", e); } return result; }
From source file:com.avego.oauth.migration.OauthDataMigrator.java
/** * This migrates the oauth refresh tokens * @throws IOException If an IO error occurs such as when serializing/deserializing data * @throws ClassNotFoundException If a class not found when serializing/deserializing data * @throws InvocationTargetException If an invocation target exception occurs when using reflection to convert to the new objects * @throws IllegalAccessException If an IllegalAccessException exception occurs when using reflection to convert to the new objects * @throws NoSuchMethodException If a NoSuchMethodException exception occurs when using reflection to convert to the new objects * @throws InstantiationException/* w w w. j a v a 2s .c om*/ * @throws IllegalArgumentException */ protected void migrateRefreshTokens() throws IOException, ClassNotFoundException, NoSuchMethodException, IllegalAccessException, InvocationTargetException, IllegalArgumentException, InstantiationException { int numTokens = this.dao.countUnmigratedRefreshTokens(); if (this.removeRefreshTokens) { System.out.println("Clearing " + numTokens + " refresh token(s)..."); this.dao.clearRefreshTokens(); System.out.println("Finished clearing refresh token(s)."); } else { int pageSize = PAGE_SIZE; int numMigrated = 0; System.out.println("Starting Migrating " + numTokens + " refresh token(s) ..."); while (numTokens > 0) { List<OauthRefreshTokenRecord> refreshTokens = this.dao .getUnmigratedOauthRefreshTokenRecords(pageSize); for (OauthRefreshTokenRecord tokenRecord : refreshTokens) { String oldTokenId = tokenRecord.getTokenId(); System.out.println("Migrating token with id: " + oldTokenId + "..."); String newTokenId = this.dao.generateNewTokenKey(tokenRecord.getTokenId()); System.out.println("New token id: " + newTokenId); // deserialize the token, note this is backward compatible OAuth2RefreshToken refreshToken = null; ObjectInputStream ois = new ObjectInputStream(new ByteArrayInputStream(tokenRecord.getToken())); try { Object obj = ois.readObject(); refreshToken = (OAuth2RefreshToken) obj; } finally { ois.close(); } // replace the token value in the refresh token.. if (this.serializeNewTokenValues) { refreshToken = replaceOAuth2RefreshTokenValue(refreshToken, newTokenId); } byte[] tokenData = SerializationUtils.serialize((Serializable) refreshToken); // deserialise the authenticated, this is NOT backward compatible so we have to read using a diff class loader OAuth2Authentication auth = deserializeOAuth2Authentication(tokenRecord.getAuthentication()); byte[] authData = SerializationUtils.serialize(auth); // this does the actual migration of the token this.dao.updateOauthRefreshToken(oldTokenId, newTokenId, tokenData, authData); System.out.println("Migrated token with id: " + oldTokenId); numMigrated++; System.out.println(""); } numTokens = this.dao.countUnmigratedRefreshTokens(); } System.out.println("Finished Migrating " + numMigrated + " refresh token(s)."); } }
From source file:org.obiba.onyx.magma.DefaultCustomVariablesRegistry.java
void initSourceMap() { sourceMap = new HashMap<String, Set<VariableValueSource>>(); if (resource.exists()) { try {// w ww. ja va 2s. com XStream xstream = getXStream(); xstream.processAnnotations(CustomVariablesGroup.class); ObjectInputStream ois = xstream.createObjectInputStream(resource.getInputStream()); try { while (true) { CustomVariablesGroup group = (CustomVariablesGroup) ois.readObject(); Set<VariableValueSource> groupSources = new HashSet<VariableValueSource>(); for (Variable variable : group.getVariables()) { groupSources.add(new JavascriptVariableValueSource(variable)); } sourceMap.put(group.getName(), groupSources); } } catch (EOFException e) { // Reached the end of the file. } finally { ois.close(); } } catch (ClassNotFoundException e) { throw new RuntimeException(e); } catch (IOException e) { throw new RuntimeException(e); } } }
From source file:de.forsthaus.example.TestCtrl.java
public void onClick$BtnSerializeTB(Event event) throws InterruptedException { Textbox fcOld;//from w ww .j av a 2 s. co m Textbox fcNew; fcOld = new Textbox("Test Textbox"); // Serialize the original class object try { final FileOutputStream fo = new FileOutputStream("cde.tmp"); final ObjectOutputStream so = new ObjectOutputStream(fo); so.writeObject(fcOld); so.flush(); so.close(); } catch (final Exception e) { throw new RuntimeException(e); } // Deserialize in to new class object try { final FileInputStream fi = new FileInputStream("cde.tmp"); final ObjectInputStream si = new ObjectInputStream(fi); fcNew = (Textbox) si.readObject(); System.out.println(fcNew.getValue()); si.close(); } catch (final Exception e) { throw new RuntimeException(e); } }
From source file:eu.annocultor.reports.parts.ReportCounter.java
@SuppressWarnings("unchecked") @Override/*w ww. jav a 2s. co m*/ public void load() throws IOException { XStream xStream = new XStream(); //BufferedReader reader = new BufferedReader(new FileReader(getFile())); CountingInputStream cis = new CountingInputStream(new FileInputStream(getFile())); ObjectInputStream in = xStream.createObjectInputStream(cis); try { int mb = 1; // how ugly but it should throw exception at the end while (true) { ObjectCountPair<T> ocp = (ObjectCountPair<T>) in.readObject(); inc(ocp.getObject(), ocp.getCount()); if (cis.getByteCount() > FileUtils.ONE_MB * 100 * mb) { log.info("Passed " + (cis.getByteCount() / FileUtils.ONE_MB) + " MB"); mb++; } } } catch (EOFException e) { // normal end of file } catch (ClassNotFoundException e) { throw new IOException(e); } finally { in.close(); cis.close(); } }
From source file:com.avego.oauth.migration.OauthDataMigrator.java
/** * This migrates the oauth access tokens * @throws IOException If an IO error occurs such as when serializing/deserializing data * @throws ClassNotFoundException If a class not found when serializing/deserializing data * @throws InvocationTargetException If an invocation target exception occurs when using reflection to convert to the new objects * @throws IllegalAccessException If an IllegalAccessException exception occurs when using reflection to convert to the new objects * @throws NoSuchMethodException If a NoSuchMethodException exception occurs when using reflection to convert to the new objects * @throws InstantiationException//www.jav a 2 s .c o m * @throws IllegalArgumentException */ @SuppressWarnings("unchecked") protected void migrateAccessTokens() throws IOException, ClassNotFoundException, NoSuchMethodException, IllegalAccessException, InvocationTargetException, IllegalArgumentException, InstantiationException { int numTokens = this.dao.countUnmigratedAccessTokens(); int pageSize = PAGE_SIZE; int numMigrated = 0; System.out.println("Starting Migrating " + numTokens + " access token(s) ..."); while (numTokens > 0) { List<OauthAccessTokenRecord> accessTokens = this.dao.getUnmigratedOauthAccessTokenRecords(pageSize); for (OauthAccessTokenRecord tokenRecord : accessTokens) { String oldTokenId = tokenRecord.getTokenId(); System.out.println("Migrating token with id: " + oldTokenId + "..."); String newTokenId = this.dao.generateNewTokenKey(tokenRecord.getTokenId()); String newRefreshToken = this.dao.generateNewTokenKey(tokenRecord.getRefreshToken()); if (this.removeRefreshTokens) { newRefreshToken = null; } System.out.println("New token id: " + newTokenId); System.out.println("New refresh token id: " + newRefreshToken); // deserialize the token, note this is backward compatible OAuth2AccessToken accessToken = null; ObjectInputStream ois = new ObjectInputStream(new ByteArrayInputStream(tokenRecord.getToken())); try { Object obj = ois.readObject(); accessToken = (OAuth2AccessToken) obj; } finally { ois.close(); } // replace the token value in the access token.. if (this.serializeNewTokenValues) { Constructor<OAuth2AccessToken> constructor = null; // see if it has a set value method Method setValueMethod = MethodUtils.getAccessibleMethod(accessToken.getClass(), "setValue", String.class); if (setValueMethod != null) { Object res = setValueMethod.invoke(accessToken, newTokenId); if (res != null && res instanceof OAuth2AccessToken) { accessToken = (OAuth2AccessToken) res; } } else { // look for constructors that we can use constructor = (Constructor<OAuth2AccessToken>) ConstructorUtils .getAccessibleConstructor(accessToken.getClass(), String.class); if (constructor != null) { OAuth2AccessToken newAccessToken = constructor.newInstance(newTokenId); // we also need to invoke setters for other fields MethodUtils.invokeMethod(newAccessToken, "setAdditionalInformation", accessToken.getAdditionalInformation()); MethodUtils.invokeMethod(newAccessToken, "setExpiration", accessToken.getExpiration()); MethodUtils.invokeMethod(newAccessToken, "setScope", accessToken.getScope()); MethodUtils.invokeMethod(newAccessToken, "setTokenType", accessToken.getTokenType()); accessToken = newAccessToken; } else { throw new IllegalStateException("The access token with the class: " + accessToken.getClass().getName() + " did not have a set value method nor a constructor taking a string which we need to update its token value"); } } // we also need to overwrite the refresh token String newRefreshTokenValue = this.dao .generateNewTokenKey(accessToken.getRefreshToken().getValue()); OAuth2RefreshToken refreshToken = replaceOAuth2RefreshTokenValue(accessToken.getRefreshToken(), newRefreshTokenValue); MethodUtils.invokeMethod(accessToken, "setRefreshToken", refreshToken); } if (this.removeRefreshTokens) { MethodUtils.invokeMethod(accessToken, "setRefreshToken", new Object[] { null }, new Class<?>[] { OAuth2RefreshToken.class }); } byte[] tokenData = SerializationUtils.serialize((Serializable) accessToken); // deserialise the authenticated, this is NOT backward compatible so we have to read using a diff class loader OAuth2Authentication auth = deserializeOAuth2Authentication(tokenRecord.getAuthentication()); byte[] authData = SerializationUtils.serialize(auth); // this does the actual migration of the token this.dao.updateOauthAccessToken(oldTokenId, newTokenId, newRefreshToken, tokenData, authData); System.out.println("Migrated token with id: " + oldTokenId); numMigrated++; System.out.println(""); } numTokens = this.dao.countUnmigratedAccessTokens(); } System.out.println("Finished Migrating " + numMigrated + " access token(s)."); }